; oligo-analysis  -type dna -l 3 -return occ,freq -v -format wc -1str -sort -i $RSAT/public_html/data/genomes/Lucilia_cuprina.ASM118794v1.34/genome/Lucilia_cuprina.ASM118794v1.34_start_codons.wc -o $RSAT/public_html/data/genomes/Lucilia_cuprina.ASM118794v1.34/genome/Lucilia_cuprina.ASM118794v1.34_start_codon_frequencies.tab
; Citation: van Helden et al. (1998). J Mol Biol 281(5), 827-42. 
; Program version              	1.169
; Slow counting mode           
; Oligomer length              	3
; Input file                   	$RSAT/public_html/data/genomes/Lucilia_cuprina.ASM118794v1.34/genome/Lucilia_cuprina.ASM118794v1.34_start_codons.wc
; Input format                 	wc
; Output file                  	$RSAT/public_html/data/genomes/Lucilia_cuprina.ASM118794v1.34/genome/Lucilia_cuprina.ASM118794v1.34_start_codon_frequencies.tab
; Count overlapping matches
; Counted on a single strand
; Background model             	Bernoulli
; Background estimation method 	
; Sequence type                	DNA
; Nb of sequences              	65535
; Sum of sequence lengths      	196605
; discarded residues           	3	 (other letters than ACGT)
; discarded occurrences        	1	 (contain discarded residues)
; nb possible positions        	65534
; total oligo occurrences      	65534
; alphabet size                	4
; nb possible oligomers        	64
; oligomers tested for significance	0
;
; column headers
;	1	seq            	oligomer sequence
;	2	id             	oligomer identifier
;	3	obs_freq       	observed relative frequency
;	4	occ            	observed occurrences
#seq	id	obs_freq	occ
atg	atg	0.2274697103793	14907
att	att	0.0446333201086	2925
aaa	aaa	0.0383465071566	2513
gtt	gtt	0.0331888790551	2175
ata	ata	0.0298623615223	1957
aat	aat	0.0289468062380	1897
ttt	ttt	0.0277718436232	1820
gaa	gaa	0.0240028077029	1573
atc	atc	0.0221564378796	1452
tta	tta	0.0199743644520	1309
gtg	gtg	0.0195623645741	1282
gta	gta	0.0194097720267	1272
gat	gat	0.0175023651845	1147
ctt	ctt	0.0170293282876	1116
gtc	gtc	0.0169225135044	1109
aac	aac	0.0164952543718	1081
caa	caa	0.0162663655507	1066
ttg	ttg	0.0158238471633	1037
aca	aca	0.0145268105106	952
tat	tat	0.0137638477737	902
gct	gct	0.0126194036683	827
act	act	0.0124820703757	818
gca	gca	0.0122531815546	803
ggt	ggt	0.0120548112430	790
aga	aga	0.0119937742241	786
ctg	ctg	0.0118259224219	775
ttc	ttc	0.0117496261483	770
cat	cat	0.0113528855251	744
cta	cta	0.0110782189398	726
agt	agt	0.0106662190619	699
gcc	gcc	0.0096591082492	633
tgt	tgt	0.0093539231544	613
ctc	ctc	0.0091860713523	602
acc	acc	0.0088198492386	578
aag	aag	0.0086519974364	567
gac	gac	0.0085299233985	559
tga	tga	0.0085146641438	558
cca	cca	0.0084383678701	553
tgg	tgg	0.0083010345775	544
agc	agc	0.0082552568133	541
tac	tac	0.0081484420301	534
tct	tct	0.0077211828974	506
taa	taa	0.0076601458785	502
tca	tca	0.0073702200385	483
gag	gag	0.0071108127079	466
tgc	tgc	0.0069582201605	456
cct	cct	0.0069124423963	453
cac	cac	0.0068361461226	448
agg	agg	0.0068056276131	446
gga	gga	0.0065004425184	426
acg	acg	0.0059968871120	393
ggc	ggc	0.0057374797815	376
tcc	tcc	0.0054780724509	359
ccc	ccc	0.0050965910825	334
cag	cag	0.0050813318278	333
cgt	cgt	0.0049439985351	324
gcg	gcg	0.0048524430067	318
ccg	ccg	0.0039674062319	260
cga	cga	0.0034333323160	225
cgc	cgc	0.0034333323160	225
tcg	tcg	0.0031891842402	209
ggg	ggg	0.0027466658528	180
cgg	cgg	0.0023804437391	156
tag	tag	0.0021973326823	144
; Host name	n52
; Job started	2017-04-15.084438
; Job done	2017-04-15.084439
; Seconds	0.76
;	user	0.76
;	system	0.03
;	cuser	0
;	csystem	0